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(-) Description

Title :  CRYSTAL STRUCTURE OF MOUSE SAHH COMPLEXED WITH ADENOSINE
 
Authors :  Y. Kusakabe, M. Ishihara, N. Tanaka
Date :  24 Jul 15  (Deposition) - 27 Jul 16  (Release) - 27 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym. Unit :  A,C
Biol. Unit 1:  A,C  (2x)
Keywords :  Hydrolase Nucleoside Complex, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kusakabe, M. Ishihara, N. Tanaka
Crystal Structure Of Mouse Sahh Complexed With Adenosine
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ADENOSYLHOMOCYSTEINASE
    Chains: A, C
    EC Number: 3.3.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: AHCY
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: ADOHCYASE,CUBP,LIVER COPPER-BINDING PROTEIN,S-ADENOSYL-L- HOMOCYSTEINE HYDROLASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AC
Biological Unit 1 (2x): AC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1ADN2Ligand/IonADENOSINE
2NA2Ligand/IonSODIUM ION
3NAD2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1ADN4Ligand/IonADENOSINE
2NA-1Ligand/IonSODIUM ION
3NAD4Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:157 , THR A:158 , THR A:159 , ASN A:191 , GLY A:222 , ASP A:223 , VAL A:224 , THR A:242 , GLU A:243 , ILE A:244 , ASP A:245 , ASN A:248 , THR A:275 , THR A:276 , GLY A:277 , CYS A:278 , ILE A:281 , ILE A:299 , GLY A:300 , HIS A:301 , LEU A:344 , ASN A:346 , HIS A:353 , GLN A:413 , LYS A:426 , TYR A:430 , ADN A:502 , HOH A:722 , HOH A:737 , HOH A:853 , HOH A:854 , HOH A:888 , HOH A:898binding site for residue NAD A 501
2AC2SOFTWAREHIS A:55 , THR A:57 , GLU A:59 , THR A:60 , ASP A:131 , GLU A:156 , THR A:157 , LYS A:186 , ASP A:190 , HIS A:301 , MET A:351 , HIS A:353 , MET A:358 , PHE A:362 , NAD A:501binding site for residue ADN A 502
3AC3SOFTWAREGLU A:59 , HOH A:774 , HOH A:801 , HOH A:1059 , ASP C:208 , HOH C:655binding site for residue NA A 503
4AC4SOFTWARETHR C:157 , THR C:158 , THR C:159 , ASN C:191 , GLY C:222 , ASP C:223 , VAL C:224 , THR C:242 , GLU C:243 , ILE C:244 , ASP C:245 , ASN C:248 , THR C:275 , THR C:276 , GLY C:277 , CYS C:278 , ILE C:281 , ILE C:299 , GLY C:300 , HIS C:301 , LEU C:344 , ASN C:346 , HIS C:353 , GLN C:413 , LYS C:426 , TYR C:430 , ADN C:502 , HOH C:673 , HOH C:773 , HOH C:877 , HOH C:890 , HOH C:895 , HOH C:906binding site for residue NAD C 501
5AC5SOFTWAREHIS C:55 , THR C:57 , GLU C:59 , THR C:60 , ASP C:131 , GLU C:156 , THR C:157 , LYS C:186 , ASP C:190 , HIS C:301 , MET C:351 , HIS C:353 , MET C:358 , PHE C:362 , NAD C:501binding site for residue ADN C 502
6AC6SOFTWAREASP A:208 , HOH A:676 , GLU C:59 , HOH C:816 , HOH C:819 , HOH C:1071binding site for residue NA C 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5AXA)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:423 -Pro A:424
2Gly C:423 -Pro C:424

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5AXA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5AXA)

(-) Exons   (0, 0)

(no "Exon" information available for 5AXA)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:429
                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh........eeeee...hhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhh...ee.....hhhhhhhhhhhh.ee..ee..eeee..hhhhhhhhhhhhhhhhhh.eeee.hhhhhhhhhhhhhh......eee...hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh..eeeee..hhhhhhhhhhh..ee.hhhhhh....eeee........hhhhhh.....eeeee........hhhhhhhhh.eeeeee..eeeee.....eeeee.hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhh......hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5axa A   4 KLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKYPQLLSGIRGISEETTTGVHNLYKMMSNGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYWLKNGRRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY 432
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423         


Chain C from PDB  Type:PROTEIN  Length:430
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhh........eeeee...hhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhh...ee.....hhhhhhhhhhh..ee..ee..eeee..hhhhhhhhhhhhhhhhhh.eeee.hhhhhhhhhhhhhh......eee...hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh..eeeee..hhhhhhhhhhh..ee.hhhhhh....eeee........hhhhhh.....eeeee........hhhhhhhhh.eeeeee..eeeee.....eeeee.hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhh......hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5axa C   3 DKLPYKVADIGLAAWGRKALDIAENEMPGLMRMREMYSASKPLKGARIAGCLHMTVETAVLIETLVALGAEVRWSSCNIFSTQDHAAAAIAKAGIPVFAWKGETDEEYLWCIEQTLHFKDGPLNMILDDGGDLTNLIHTKYPQLLSGIRGISEETTTGVHNLYKMMSNGILKVPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACKEGNIFVTTTGCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLNENAVEKVNIKPQVDRYWLKNGRRIILLAEGRLVNLGCAMGHPSFVMSNSFTNQVMAQIELWTHPDKYPVGVHFLPKKLDEAVAEAHLGKLNVKLTKLTEKQAQYLGMPINGPFKPDHYRY 432
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5AXA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5AXA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5AXA)

(-) Gene Ontology  (12, 12)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        SAHH_MOUSE | P50247: 5axb 5axc 5axd

(-) Related Entries Specified in the PDB File

5axb 5axc 5axd